vdjHopper Example Data

vdjHopper Example Data This repository provides example single-cell V(D)J sequencing files used by the vdjHopper R package. The data are intended for demonstration and teaching purposes only, allowing users to test the package’s decontamination, IgBLAST integration, and chain pairing workflows without requiring large raw datasets. Contents The dataset contains representative files derived from the 10x Genomics NSCLC tumor TCR enrichment dataset .All files have been subset or downsampled to reduce size and ensure the total archive remains <5 MB. all_contig_annotations.csv.gzFiltered contig annotations (CSV, compressed). Contains selected columns such as barcode, chain, cdr3, v_gene, and j_gene. all_contig.fasta.gzRepresentative TCR sequences in FASTA format. all_contig.fastq.gzA small subset of raw sequencing reads in FASTQ format, provided for demonstration only. all_contig.bamFull BAM alignment file (~3.5 GB). This file is not included in the CRAN package build but can be downloaded from this Zenodo record if required for advanced tutorials. Users should call vdjHopper::fetch_example_data() to retrieve and cache this file programmatically. License and Source Original dataset: 10x Genomics – NSCLC tumor TCR enrichment dataset License: CC BY 4.0 When using this data, please cite both 10x Genomics.